mcl(7)

💖 NAME 💖

okay so bestie, welcome to mcl(7) — the MISCELLANEOUS section of the manual, the lil corner where the whole squad gets introduced 🫶

mclfamily — a description of the mcl family of cluster applications.

mcl is an implementation of the Markov Cluster Algorithm, aka the MCL algoritm. It is described in the mcl manual. Several other applications are part of the MCL distribution. This manual page gives an overview. iykyk 💅

✨ DESCRIPTION ✨

here's the full roster, no one left out, everyone gets their moment 🌈

• mcl(1) — the cluster algorithm itself. the main character, literally 👑
• mclfaq(7) — MCL Frequently Asked Questions
• mcxio(5) — the network/matrix input/output format
• mcx(1) — general network/matrix tasks
• mcx diameter — compute diameter of an undirected network
• mcx ctty — compute betweenness centrality
• mcx clcf — compute clustering coefficient
• mcx erdos — compute shortest paths in graphs
• mcx query — analyse networks at different thresholds
• mcx alter — apply network transformations
• mcx convert — convert between interchange/binary storage types
• mcxarray(1) — transform array data to MCL matrices
• mcxdump(1) — dump a matrix optionally with label substitions
• mcxload(1) — load label data into matrix and tab files
• mcxrand(1) — randomly remove, add, and perturb edge weights
• mcxmap(1) — relabel indices in a graph/matrix
• mcxsubs(1) — extracting submatrices in various ways
• mcxi(1) — general matrix operations
• clm(1) — general graph-clustering related tasks
• clm dist — compute split/join distance between clusterings
• clm vol — derive node volatility scores from a set of clusterings
• clm info — compute performance measure for clusterings
• clm meet — compute intersection of clusterings
• clm mate — find best matching clusters between clusterings
• clm close — fetch connected components from graphs or subgraphs
• clm imac — interpret MCL iterand/matrix as clustering
• clm order — reorder indices to represent blocks from different clusterings
• clm residue — extend subgraph clustering
• mclblastline(1) — BLAST pipeline
• mcxdeblast(1) *parse BLAST files

⚠️ real talk: entries marked * are not available if only a default install is done. so if you're on a plain vanilla setup, that one's not coming to the party 🙈

and that's the whole vibe check, bestie — this is mcl version 22-282, dated 9 Oct 2022, signing off from the mcl(7) page 💜✨ go cluster something gorgeous, you absolute icon 🎀🦋